08:49
To: us...@open-mpi.org
Subject: Re: [OMPI users] File locking in ADIO, OpenMPI 1.6.4
On 09/17/2014 05:46 PM, Beichuan Yan wrote:
> Hi Rob,
>
> As you pointed out in April that there are many cases that could
> arouse ADIOI_Set_lock error. My code writes to a file at a location
>
Hi Rob,
As you pointed out in April that there are many cases that could arouse
ADIOI_Set_lock error. My code writes to a file at a location specified by a
shared file pointer (it is a blocking and collective call):
MPI_File_write_ordered(contactFile, const_cast (inf.str().c_str()),
length, MP
finalize
themselves. My guess is that is the source - would help us target the problem.
On Mar 20, 2014, at 9:00 PM, Beichuan Yan wrote:
> Here is an example of my data measured in seconds:
>
> communication overhead = commuT + migraT + print, compuT is
> computational cost, tot
[mailto:users-boun...@open-mpi.org] On Behalf Of Gus Correa
Sent: Thursday, March 20, 2014 15:08
To: Open MPI Users
Subject: Re: [OMPI users] OpenMPI job initializing problem
On 03/20/2014 04:48 PM, Beichuan Yan wrote:
> Ralph and Noam,
>
> Thanks for the clarifications, they are important.
I could
[mailto:users-boun...@open-mpi.org] On Behalf Of Beichuan Yan
Sent: Thursday, March 20, 2014 15:15
To: Open MPI Users
Subject: Re: [OMPI users] OpenMPI job initializing problem
As for the performance, my 4-node (64-processes) 3-hour job indicates Intel MPI
and OpenMPI have close benchmarks. Intel
Squyres
(jsquyres)
Sent: Thursday, March 20, 2014 11:15
To: Open MPI Users
Subject: Re: [OMPI users] OpenMPI job initializing problem
On Mar 20, 2014, at 12:48 PM, Beichuan Yan wrote:
> 2. http://www.open-mpi.org/community/lists/users/2011/11/17684.php
> In the upcoming OMPI v1.7, we revamp
Mar 20, 2014, at 9:48 AM, Beichuan Yan wrote:
>
>> Hi,
>>
>> Today I tested OMPI v1.7.5rc5 and surprisingly, it works like a charm!
>>
>> I found discussions related to this issue:
>>
>> 1. http://www.open-mpi.org/community/lists/users/2011/11/17688.php
oblem
On Mar 20, 2014, at 9:48 AM, Beichuan Yan wrote:
> Hi,
>
> Today I tested OMPI v1.7.5rc5 and surprisingly, it works like a charm!
>
> I found discussions related to this issue:
>
> 1. http://www.open-mpi.org/community/lists/users/2011/11/17688.php
> The correct
Correa
Sent: Friday, March 07, 2014 18:41
To: Open MPI Users
Subject: Re: [OMPI users] OpenMPI job initializing problem
On 03/06/2014 04:52 PM, Beichuan Yan wrote:
> No, I did all these and none worked.
>
> I just found, with exact the same code, data and job settings, a job can
> rea
14 03:35 PM, Beichuan Yan wrote:
> Gus,
>
> Yes, 10.148.0.0/16 is the IB subnet.
>
> I did try others but none worked:
> #export
> TCP="--mca btl sm,openib"
> No run, no output
If I remember right, and unless this changed in recent OMPI vervsions, you also
lete OFED installation, some that
were not mounting shared file systems properly, etc.
[I didn't administer that one!]
Hopefully that is not the problem you are facing, but verbose output
may help anyways.
I hope this helps,
Gus Correa
On 03/06/2014 01:49 PM, Beichuan Yan wrote:
> 1.
y) common problems.
**
I hope this helps,
Gus Correa
On 03/03/2014 10:13 PM, Beichuan Yan wrote:
> 1. info from a compute node
> -bash-4.1$ hostname
> r32i1n1
> -bash-4.1$ df -h /home
> FilesystemSize Used Avail Use% Mounted on
> 10.148.18.45@o2ib:10.148.18.46@o2ib
system administrator of this machine.
Gus Correa
On 03/03/2014 07:43 PM, Beichuan Yan wrote:
> Gus,
>
> I am using this system:
> http://centers.hpc.mil/systems/unclassified.html#Spirit. I don't know exactly
> configurations of the file system. Here is the output
TMPDIR is on Lustre (did you say this?, anyway I don't
remember) you could perhaps try to force it to /tmp:
export TMPDIR=/tmp,
If the cluster nodes are diskfull /tmp is likely to exist and be local to the
cluster nodes.
[But the cluster nodes may be diskless ... :( ]
I hope this helps,
March 03, 2014 16:57
To: Open MPI Users
Subject: Re: [OMPI users] OpenMPI job initializing problem
How about setting TMPDIR to a local filesystem?
On Mar 3, 2014, at 3:43 PM, Beichuan Yan wrote:
> I agree there are two cases for pure-MPI mode: 1. Job fails with no apparent
> reason; 2 jo
I agree there are two cases for pure-MPI mode: 1. Job fails with no apparent
reason; 2 job complains shared-memory file on network file system, which can
be resolved by " export TMPDIR=/home/yanb/tmp", /home/yanb/tmp is my local
directory. The default TMPDIR points to a Lustre directory.
There
hostfile $PBS_NODEFILE ./paraEllip3d input.txt
So I am wondering if Open MPI has any problem/solution with the shared-memory
transfer?
Thanks,
Beichuan
-Original Message-
From: Beichuan Yan
Sent: Sunday, March 02, 2014 00:56
To: 'Open MPI Users'
Subject: RE: [OMPI users] O
Thanks. Yes I am asking sysadmin to install the libibverbs-devel, which has not
been installed.
It appears that Open MPI 1.6.5 does not need the verbs.h, but 1.7.4 does need
it?
Beichuan
-Original Message-
From: users [mailto:users-boun...@open-mpi.org] On Behalf Of Jeff Squyres
(jsq
nue
Our system is Red Hat 6.4. Do we need to install more packages of Infiniband?
Can you please advise?
Thanks,
Beichuan Yan
-Original Message-
From: users [mailto:users-boun...@open-mpi.org] On Behalf Of Gus Correa
Sent: Friday, February 28, 2014 15:59
To: Open MPI Users
Subject: Re: [OMP
"
mpirun $TCP -hostfile $PBS_NODEFILE -np 8 ./paraEllip3d input.txt
3. Then I turned to Intel MPI, which surprisingly starts and runs my job
correctly each time (though it is a little slower than OpenMPI, maybe 15%
slower, but it works each time).
Can you please advise? Many thanks.
Sincerely,
Beichuan Yan
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